Basic Information
VIS ID
TVIS44007746
Fusion event
HTLV-1-SCN4B integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24735963
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
118022262/118151547 (Hg38)
End
118022262/118151547 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
SCN4B
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-1225-3p ; hsa-mir-1233-3p ; hsa-mir-214-3p ; hsa-mir-3619-5p ; hsa-mir-4299 ; hsa-mir-4471 ; hsa-mir-4530 ; hsa-mir-4710 ; hsa-mir-4792 ; hsa-mir-582-3p ; hsa-mir-657 ; hsa-mir-761 ; hsa-mir-7855-5p ; hsa-mir-8059
Nearest miRNA
hsa-mir-10392/Upstream/4701459; hsa-let-7a-2/Downstream/492453;
Nearest TSS
ENST00000527297/Upstream/5847; ENST00000529713/Downstream/1273;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/5278, chr11-CpG: 77/Downstream/1090
Upstream sequence
AACCAGCATGACATCTGTGCCAAGGTACAGGAGAAAACAAGGGTGTCTTCCATCTAGCGGTACAGAGGTAAATAAACATCCCAAGTACAAGAAATACTCT
Downstream sequence
CTCCCCTCTTCACCACCAGGCACCAACCTGCTAGATCTGCACACAGTTTACATTCGCAGAAACAGTAGCCACTTCCCTTATAGGGTTCTGTCTCCCTGTT
Reference
Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.
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